PUBLICATIONS

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Frontiers in Immunology, September 04, 2024; PMID: 39301027

Deciphering the HLA-E immunopeptidome with mass spectrometry: an opportunity for universal mRNA vaccines and T-cell-directed immunotherapies

Weitzen M, Shahbazy M, Kapoor S, Caron E

Journal Of Experimental Medicine, November 30, 2023; PMID: 38032361

Scaling up robust immunopeptidomics technologies for a global T cell surveillance digital network

Kapoor S, Maréchal L, Sirois I, Caron É

Nucleic Acids Research, November 24, 2023; PMID: 38000392

The SysteMHC Atlas v2.0, an updated resource for mass spectrometry-based immunopeptidomics

Huang X, Gan Z, Cui H, Lan T, Liu Y, Caron E, Shao W

Molecular & Cellular Proteomics, September 13, 2023; PMID: 37709257

Integrated Immunopeptidomics and Proteomics Study of SARS-CoV-2–Infected Calu-3 Cells Reveals Dynamic Changes in Allele-specific HLA Abundance and Antigen Presentation

Chen R, Fulton K, Tran A, Duque D, Kovalchik K, Caron E, Twine S, Li J

Cell Reports Methods, June 26, 2023; PMID: 37426761

Unlocking the potential of microfluidics in mass spectrometry-based immunopeptidomics for tumor antigen discovery

Stutzmann C, Peng J, Wu Z, Savoie C, Sirois I, Thibault P, Wheeler A, Caron E

Seminars In Immunology, June 20, 2023; PMID: 37348326

Introduction to the Special Issue: The Immunopeptidome

Caron É, Perreault C

Cancer Discovery, October 24, 2022; PMID: 36302218

Cellular senescence is immunogenic and promotes anti-tumor immunity

Marin I, Boix O, Garcia-Garijo A, Sirois I, Caballe A, Zarzuela E, Ruano I, Attolini C, Prats N, López-Domínguez J, Kovatcheva M, Garralda E, Muñoz J, Caron E, Abad M, Gros A, Pietrocola F, Serrano M

Frontiers In Medicine, February 20, 2022; PMID: 35265640

Population Genomics Approaches for Genetic Characterization of SARS-CoV-2 Lineages

Mostefai F, Gamache I, N'Guessan A, Pelletier J, Huang J, Murall CL, Pesaranghader A, Gaonac'h-Lovejoy V, Hamelin DJ, Poujol R, Grenier JC, Smith M, Caron E, Craig M, Wolf G, Krishnaswamy S, Shapiro BJ, Hussin JG

IScience, January 18, 2022; PMID: 35141507

Understanding the constitutive presentation of MHC class I immunopeptidomes in primary tissues

Kubiniok P, Marcu A, Bichmann L, Kuchenbecker L, Schuster H, Hamelin D, Duquette J, Kovalchik K, Wessling L, Kohlbacher O, Rammensee H, Neidert M, Sirois I, Caron E

Cell Systems February 16, 2022; PMID: 34637888

The mutational landscape of SARS-CoV-2 variants diversifies T cell targets in an HLA-supertype-dependent manner

Hamelin DJ, Fournelle D, Grenier JC, Schockaert J, Kovalchik KA, Kubiniok P, Mostefai F, Duquette JD, Saab F, Sirois I, Smith MA, Pattijn S, Soudeyns H, Decaluwe H, Hussin J, Caron E

Methods In Molecular Biology, December 15, 2021; PMID: 34905171

Generation of HLA Allele-Specific Spectral Libraries to Identify and Quantify Immunopeptidomes by SWATH/DIA-MS

Kovalchik K, Hamelin D, Caron E

STAR Protocols October 21, 2021; PMID: 34746858

RHybridFinder: An R package to process immunopeptidomic data for putative hybrid peptide discovery

Saab F, Hamelin DJ, Ma Q, Kovalchik KA, Sirois I, Faridi P, Li C, Purcell AW, Kubiniok P, Caron E

Molecular & Cellular Proteomics November 17, 2021; PMID: 34798331

MhcVizPipe: A Quality Control Software for Rapid Assessment of Small- to Large-Scale Immunopeptidome Datasets

Kovalchik K, Ma Q, Wessling L, Saab F, Duquette JD, Kubiniok P, Hamelin DJ, Faridi P, Li C, Purcell AW, Jang A, Paramithiotis E, Tognetti M, Reiter L, Bruderer R, Lanoix J, Bonneil E, Courcelles M, Thibault P, Caron E, Sirois I

J. Vis. Exp. October 15, 2021; PMID: 34723952

Immunopeptidomics: Isolation of Mouse and Human MHC Class I- and II-Associated Peptides for Mass Spectrometry Analysis

Sirois I, Isabelle M, Duquette JD, Saab F, Caron E

Book Chapter

Methods Mol Biol. 2020; PMID: 32124319

The SysteMHC Atlas: a Computational Pipeline, a Website, and a Data Repository for Immunopeptidomic Analyses

Shao W, Caron E, Pedrioli P, Aebersold R

Molecular & Cellular Proteomics, January 01, 2020; PMID: 31744855

The Human Immunopeptidome Project: a roadmap to predict and treat immune diseases

Vizcaíno JA, Kuniok P, Kovalchik K, Ma Q, Despault J, Mongrain I, Deutsch EW, Peters B, Sette A, Sirois I and Caron E

Sci Data 2018, 5:180157

A tissue-based draft map of the murine MHC class I immunopeptidome

Schuster H, Shao W, Weiss T, Pedrioli P, Roth P, Weller M, Campbell DS, Deutsch EW, Moritz RL, Rammensee HG, Aebersold R*, Caron E*

*Co-corresponding author

Nucleic Acids Research - 2018, 46 (D1):D1237-D1247

The SysteMHC Atlas project

Shao W, Pedrioli P, Wolski W, Scurtescu C, Schmid E, Vizcaino JA, Courcelles M, Schuster H, Kowalewski D, Marino F, Arlehamn CSL, Vaughan K, Peters B, Sette A, Ottenhoff THM, Meijgaarden KE, Nieuwenhuizen N, Kaufmann SHE, Schlapbach R, Castle JC, Nesvizhskii AI, Nielsen M, Deutsch EW, Campbell DS, Moritz RL, Zubarev RA, Ytterberg AJ, Purcell AW, Marcilla M, Paradela A, Wang Q, Costello CE, Ternette N, van Veelen PA, van Els CACM, Heck AJR, de Souza GA, Sollid LM, Admon A, Stevanovic S, Rammensee HG, Thibault P, Perreault C, Bassani-Sternberg M, Aebersold R*, and Caron E*

*Co-corresponding author

Immunity - 2017, 47:203-208.

A Case for a Human Immuno-Peptidome Project Consortium

Caron E§*, Aebersold R, Banaei-Esfahani A, Chong C, Bassani-Sternberg M*

§Lead contact,*Co-corresponding author

Cell Reports - 28 March 2017, 18(13):3219-3226

Precise temporal profiling of protein signaling complexes in primary cells using SWATH mass spectrometry

Caron E*, Roncagalli R*, Takeshi H, Wolski WE, Meena C, Menoita MG, Durand S, Garcia-Blesa A, Fierro-Monti I, Sajic T, Heusel M, Weiss T, Malissen M, Schlapbach R, Collins B, Ghosh S, Kitano H, Aebersold R, Malissen B, Gstaiger M.

*Co-first author

Mol Cell Proteomics - December 2015, 14(12):3105-17

Analysis of Major Histocompatibility Complex (MHC) Immunopeptidomes Using Mass Spectrometry

Caron E, Kowalewski DJ, Chiek Koh C, Sturm T, Schuster H, Aebersold R

eLife - 2015, 4:e07661

An open-source computational and data resource to analyze quantitative digital maps of immunopeptidomes

Caron E*, Espona L, Kowalewski D, Schuster H, Ternette N, Alpízar A, Schittenhelm RB, Lindestam CSA, Koh CC, Gillet L, Rabsteyn A, Sturm T, Navarro P, Kim S, Lam H, Marcilla M, Sette A, Campbell DS, Deutsch EW, Moritz RL, Purcell AW, Rammensee HG, Stevanovic S, Aebersold R*

*Co-corresponding author

Nature - 2014, 515:577-581

Checkpoint blockade cancer immunotherapy targets tumour-specific mutant antigens

Gubin MM, Zhang X, Schuster H, Caron E, Noguchi T, Ward JP, Ivanova Y, Hundal J, Arthur CD, Krebber WJ, Mulder GE, Vesely MD, Lam SSK, Korman AJ, Allison JP, Freeman GJ, Sharpe AH, Pearce EL, Aebersold R, Rammensee HG, Melief CJM, Mardis ER, Gillanders WE, Artyomov MN, Schreiber RD

Molecular System Biology - 2011, 7:753

The MHC class I immunopeptidome conveys to the cell surface an integrative view of cellular regulation

Caron E*, Vincent K*, Fortier MH*, Laverdure JP, Bramoullé A, Hardy MP, Voisin G, Roux PP, Lemieux S, Thibault P, Perreault C.

*Co-first author

Molecular System Biology - 2010, 6:453

A comprehensive map of the mTOR signaling network

Caron E, Ghosh S, Matsuoka Y, Ashton-Beaucage D, Therrien M, Lemieux S, Perreault C, Roux PP, Kitano H